AutismKB 2.0

Annotation Detail for RARA


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Basic Information Top
Gene Symbol:RARA ( NR1B1,RAR )
Gene Full Name: retinoic acid receptor, alpha
Band: 17q21.2
Quick LinksEntrez ID:5914; OMIM: 180240; Uniprot ID:RARA_HUMAN; ENSEMBL ID: ENSG00000131759; HGNC ID: 9864
Relate to Another Database: SFARIGene; denovo-db
Unigene EST Top
Pool Name Gene EST/Total EST in pool Transcripts per million(TPM) Bar based on TPM
embryoid body3 / 7076142
blastocyst3 / 6231948
fetus21 / 56401237
neonate1 / 3109732
infant1 / 2362042
juvenile2 / 5555635
adult75 / 193912138
Pool Name Gene EST/Total EST in pool Transcripts per million(TPM) Bar based on TPM
adrenal tumor0 / 127940 
bladder carcinoma0 / 174750 
breast (mammary gland) tumor9 / 9417895
cervical tumor2 / 3436658
chondrosarcoma5 / 8282360
colorectal tumor4 / 11424635
esophageal tumor2 / 17290115
gastrointestinal tumor2 / 11936916
germ cell tumor6 / 26384522
glioma9 / 10688384
head and neck tumor6 / 13630244
kidney tumor3 / 6895943
leukemia2 / 9584220
liver tumor4 / 9635941
lung tumor3 / 10312729
lymphoma2 / 7175527
non-neoplasia1 / 9725010
normal121 / 336030736
ovarian tumor2 / 7668226
pancreatic tumor5 / 10461647
primitive neuroectodermal tumor of the CNS17 / 125680135
prostate cancer6 / 10268058
retinoblastoma2 / 4635643
skin tumor5 / 12494940
soft tissue/muscle tissue tumor6 / 12519147
uterine tumor3 / 9025733
Pool Name Gene EST/Total EST in pool Transcripts per million(TPM) Bar based on TPM
adipose tissue0 / 131060 
adrenal gland2 / 3319760
ascites0 / 400150 
bladder0 / 297570 
blood12 / 12347897
bone3 / 7165541
bone marrow2 / 4880140
brain32 / 110098929
cervix4 / 4817183
connective tissue3 / 14925520
ear0 / 162120 
embryonic tissue7 / 21572232
esophagus2 / 2020998
eye12 / 21105456
heart2 / 8962622
intestine8 / 23447234
kidney6 / 21177728
larynx0 / 241450 
liver6 / 20774328
lung11 / 33697432
lymph2 / 4427045
lymph node3 / 9161032
mammary gland24 / 153271156
mouth2 / 6705229
muscle1 / 1077159
nerve1 / 1576863
ovary3 / 10205129
pancreas9 / 21481241
parathyroid0 / 205390 
pharynx1 / 4132824
pituitary gland0 / 165850 
placenta5 / 28082517
prostate6 / 18934531
salivary gland0 / 201550 
skin6 / 21057428
spleen4 / 5395274
stomach2 / 9661920
testis11 / 33044233
thymus3 / 8113136
thyroid3 / 4747363
tonsil0 / 169990 
trachea7 / 52413133
umbilical cord0 / 136800 
uterus15 / 23287864
vascular3 / 5178057
Microarray in BioGPS Top
Select probe  
  • Microarray Platform: GeneAtlas U133A, gcrma
  • Affymatrix Probe ID: 203750_s_at
Cell line Expression level Expression bar
721_B_lymphoblasts16.05
Adipocyte12.25
AdrenalCortex16.4
Adrenalgland10.6
Amygdala15.1
Appendix13.3
AtrioventricularNode14.4
BDCA4+_DentriticCells13
Bonemarrow12.8
BronchialEpithelialCells11.95
CD105+_Endothelial12.4
CD14+_Monocytes16.2
CD19+_BCells(neg._sel.)13.55
CD33+_Myeloid18.45
CD34+16.4
CD4+_Tcells18.3
CD56+_NKCells14.4
CD71+_EarlyErythroid18.5
CD8+_Tcells12.2
CardiacMyocytes60.25
Caudatenucleus11.05
Cerebellum10.85
CerebellumPeduncles14.25
CiliaryGanglion10.15
CingulateCortex12.95
Colorectaladenocarcinoma32.85
DorsalRootGanglion10.75
FetalThyroid11.4
Fetalbrain13.8
Fetalliver22.2
Fetallung9.8
GlobusPallidus9.45
Heart67.6
Hypothalamus11.6
Kidney11.75
Leukemia_chronicMyelogenousK-56211
Leukemia_promyelocytic-HL-6011.2
Leukemialymphoblastic(MOLT-4)9.7
Liver21.8
Lung13.25
Lymphnode12.15
Lymphoma_burkitts(Daudi)16.15
Lymphoma_burkitts(Raji)25
MedullaOblongata10.7
OccipitalLobe11.55
OlfactoryBulb9.55
Ovary8.8
Pancreas11.8
PancreaticIslet14.2
ParietalLobe13.75
Pituitary14.75
Placenta12.65
Pons12.05
PrefrontalCortex15.7
Prostate16.65
Salivarygland12.3
SkeletalMuscle16.4
Skin13.6
SmoothMuscle12.75
Spinalcord15.3
SubthalamicNucleus11.5
SuperiorCervicalGanglion14.25
TemporalLobe11.6
Testis9.9
TestisGermCell8.85
TestisIntersitial9.65
TestisLeydigCell13.3
TestisSeminiferousTubule10.75
Thalamus12.9
Thymus8.9
Thyroid19.25
Tongue14.9
Tonsil12.35
Trachea11.35
TrigeminalGanglion13.2
Uterus11
UterusCorpus11.75
WholeBlood19.85
Wholebrain9.5
colon18.75
pineal_day20.8
pineal_night20.76
retina16.85
small_intestine14.1
Allen Brain Atlas Top
Human Whole Brain Microarrayview in Allen Brain Atlas
  • Probe id     Donor id      
  • Probe name: A_23_P207842
  • Donor H0351.2001
  • Sex: Male     Age: 24 years     Race/Ethnicity: African American     Handedness: Left
  • Tissue Receipt Date: 7/29/2009     Serology: Pass      Tissue pH :6.72     Additional Medical Information :History of asthma
  • Postmortem Interval: 23 hours (estimated time of death to time that tissue is frozen)
  • Toxicology: Positive for atropine and caffeine, at levels usually not toxicologically significant
Tissue Expression(mean ± stddev) Expression Bar
Amygdala6.13 ± 0.67
Basal Forebrain6.01 ± 0.24
Basal Part of Pons5.75 ± 0.3
Cerebellar Cortex5.7 ± 0.39
Cerebellar Nuclei6.19 ± 0.48
Claustrum6.27 ± 0.65
Epithalamus5.27 ± 0.32
Frontal Lobe5.89 ± 0.55
Globus Pallidus6.1 ± 0.67
Hypothalamus5.68 ± 0.56
Insula5.76 ± 0.5
Limbic Lobe5.98 ± 0.52
Mesencephalon5.99 ± 0.5
Myelencephalon5.96 ± 0.57
Occipital Lobe6.01 ± 0.5
Parietal Lobe5.9 ± 0.5
Pontine Tegmentum5.89 ± 0.46
Striatum6.19 ± 0.52
Subthalamus5.8 ± 0.6
Temporal Lobe5.8 ± 0.54
Thalamus6.05 ± 0.46
White Matter5.62 ± 0.54
Mouse Brain ISH
Gene Symbol Brain Structure ID Brain Structure Name Express Desity/Level (Meatured by ISH) Express Bar
RaraCBCerebellum40.62
29.55
RaraCTXCerebral cortex40.79
24.03
RaraHIPHippocampal region28.45
16.08
RaraHPFHippocampal formation29.47
17.45
RaraHYHypothalamus13.65
7.24
RaraLSXLateral septal complex3.2
1.56
RaraMBMidbrain26.29
15.89
RaraMYMedulla42.94
34.71
RaraOLFOlfactory bulb26.33
13.47
RaraPPons37.62
28.68
RaraPALPallidum6.74
4.4
RaraRHPRetrohippocampal region29.65
17.73
RarasAMYStriatum-like amygdalar nuclei8.12
4.27
RaraSTRStriatum7.15
3.63
RaraSTRdStriatum dorsal region4.88
2.54
RaraSTRvStriatum ventral region17.47
7.99
RaraTHThalamus19.33
10.92
Peptide Top

Simple Query:


  (e.g. CHD8)

Syndromic Genes

Non-syndromic Genes

AutismKB Statistics

  • Studies: 1,036
  • Genes: 1,379
  • CNVs/SVs: 5,420
  • SNVs/Indels: 11,669
  • de novo Mutations: 5,669
  • Mosaics: 789
  • Linkage Regions: 172
  • Paper Collected: 6/30/2018
  • Last Update: 8/26/2018


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